DreINT0099013 @ danRer10
Intron Retention
Gene
ENSDARG00000078994 | muc2.2
Description
mucin 2.2, oligomeric mucus/gel-forming [Source:ZFIN;Acc:ZDB-GENE-120904-1]
Coordinates
chr25:8267219-8267461:+
Coord C1 exon
chr25:8267219-8267314
Coord A exon
chr25:8267315-8267420
Coord C2 exon
chr25:8267421-8267461
Length
106 bp
Sequences
Splice sites
5' ss Seq
GCGGTATCA
5' ss Score
2.97
3' ss Seq
GTGTGTGTTGCTTCTTACAGAGT
3' ss Score
9.33
Exon sequences
Seq C1 exon
ATTGTAGCATGTGCCCATTTTCGGAGGAAAAGTGTGAGGTTGGATATGAACTGATTGTGCACCCTTACGGAGACTTCTGTCCAGAAATCAGATGCG
Seq A exon
GTATCACTATCAGTCCTAAACACTTCCATCAGCTTGTCTTTTTGACATAATGTTTGTCTTTAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGCTTCTTACAG
Seq C2 exon
AGTCAAAAGAAGTGTGTGCCTACAACAACACAGAATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078994:ENSDART00000154598:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009313=VWC=PU(12.5=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTAGCATGTGCCCATTTTCG
R:
TTCTGTGTTGTTGTAGGCACACA
Band lengths:
130-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]